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The results should be in pruebahipocampo.txt, which will be located in the directory from which you ran the command. Cheers, /Eugenio
-- Juan Eugenio Iglesias ERC Senior Research Fellow Centre for Medical Image Computing (CMIC) University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Miguel Ángel Rivas Fernández miguelrivasfdez@gmail.com Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Tuesday, 29 May 2018 at 09:46 To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Command to export hippocampal subfields segmentations
External Email - Use Caution Hi Eugenio,
I want to export the volumnes of all subjects, I used the quantifyHippocampalSubfields.sh command and apparently it did work but now I can´t find where Freesurfer saved the file.
Here is the response of Freesurfer
rmnlab1:~ neucoga$ quantifyHippocampalSubfields.sh T1-T2_3D_SAG pruebahipocampo.txt /Applications/freesurfer/subjects Gathering results from subjects in: /Applications/freesurfer/subjects Using the suffix name: T1-T2_3D_SAG And writing them to: pruebahipocampo.txt
I looked for it in the subjects folder but I can not find the file anywhere.
Thanks in advance
2018-05-29 10:34 GMT+02:00 Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.ukmailto:e.iglesias@ucl.ac.uk>:
External Email - Use Caution Hola Miguel Ángel, What do you mean by exporting? The volumes? There is a command to gather the volumes from all subjects in the subjects directory, which is: quantifyHippocampalSubfields.sh (in FreeSurfer 6.0) quantifyHAsubregions.sh (in dev version) Cheers, /Eugenio
-- Juan Eugenio Iglesias ERC Senior Research Fellow Centre for Medical Image Computing (CMIC) University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/
From: <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Miguel Ángel Rivas Fernández <miguelrivasfdez@gmail.commailto:miguelrivasfdez@gmail.com> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Date: Tuesday, 29 May 2018 at 09:32 To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] Command to export hippocampal subfields segmentations
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Hi Freesurfer developers,
I was looking for the freesurfer command to export hippocampal sufields segmentations but I did not found. What is the command to export this measures and in what folder are exported the file?
Thanks a lot.
Best,
-- Miguel Ángel Rivas Fernández
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-- Miguel Ángel Rivas Fernández